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BOOK:"METH0DS IN ARABIDOPSIS RESEARCH"

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What's being published...
archives of previous postings

Attractiveness of Constitutive and Herbivore-Induced Sesquiterpene Blends of Maize to the Parasitic Wasp Cotesia marginiventris (Cresson).
Fontana A, Held M, Fantaye CA, Turlings TC, Degenhardt J, Gershenzon J.

Identification and molecular properties of SUMO-binding proteins in Arabidopsis.
Park HC, Choi W, Park HJ, Cheong MS, Koo YD, Shin G, Chung WS, Kim WY, Kim MG, Bressan RA, Bohnert HJ, Lee SY, Yun DJ.

Plant NBR1 is a selective autophagy substrate and a functional hybrid of the mammalian autophagic adapters NBR1 and p62/SQSTM1.
Svenning S, Lamark T, Krause K, Johansen T.

Insights into the composition and assembly of the membrane arm of plant complex I through analysis of subcomplexes in Arabidopsis mutant lines.
Meyer EH, Solheim C, Tanz SK, Bonnard G, Millar AH.

Identification of an ARGONAUTE for antiviral RNA silencing in Nicotiana benthamiana.
Scholthof HB, Alvarado VY, Vega-Arreguin JC, Ciomperlik J, Odokonyero D, Brosseau C, Jaubert M, Zamora A, Moffett P.

siRNA-mediated chromatin maintenance and its function in Arabidopsis thaliana.
Kanno T, Habu Y.

NIMA-related kinases 6, 4, and 5 interact with each other to regulate microtubule organization during epidermal cell expansion in Arabidopsis thaliana.
Motose H, Hamada T, Yoshimoto K, Murata T, Hasebe M, Watanabe Y, Hashimoto T, Sakai T, Takahashi T.

Arabidopsis ENHANCED DISEASE RESISTANCE 1 is required for pathogen-induced expression of plant defensins in nonhost resistance and acts through interference of MYC2-mediated repressor function.
Hiruma K, Nishiuchi T, Kato T, Bednarek P, Okuno T, Schulze-Lefert P, Takano Y.

« In Vivo Analysis of local wall stiffness at the Shoot Apical Meristem in Arabidopsis using atomic force microscopy »
Milani P, Gholamirad M, Traas J, Arnéodo A, Boudaoud A, Argoul F, Hamant O.

Cloning and functional characterization of a caffeic acid O-methyltransferase from Trigonella foenum-graecum L.
Qin JC, Zhang YM, Lang CY, Yao YH, Pan HY, Li X.

Structure-Function Analysis of STRUBBELIG, an Arabidopsis Atypical Receptor-Like Kinase Involved in Tissue Morphogenesis.
Vaddepalli P, Fulton L, Batoux M, Yadav RK, Schneitz K.

cis- and trans-Regulation of miR163 and Target Genes Confers Natural Variation of Secondary Metabolites in Two Arabidopsis Species and Their Allopolyploids.
Ng DW, Zhang C, Miller M, Palmer G, Whiteley M, Tholl D, Chen ZJ.

An Arabidopsis E3 Ligase, SHOOT GRAVITROPISM9, Modulates the Interaction between Statoliths and F-Actin in Gravity Sensing.
Nakamura M, Toyota M, Tasaka M, Morita MT.

Innate immunity in rice.
Chen X, Ronald PC.

Enhanced activity of galactono-1,4-lactone dehydrogenase and ascorbate-glutathione cycle in mitochondria from complex III deficient Arabidopsis.
Zsigmond L, Tomasskovics B, Deák V, Rigó G, Szabados L, Bánhegyi G, Szarka A.

Spatiotemporal Control of Small GTPases with Light Using the LOV Domain.
Wu YI, Wang X, He L, Montell D, Hahn KM.

CIPK7 is involved in cold response by interacting with CBL1 in Arabidopsis thaliana.
Huang C, Ding S, Zhang H, Du H, An L.

Arabidopsis ENHANCER OF SHOOT REGENERATION (ESR)1 and ESR2 regulate in vitro shoot regeneration and their expressions are differentially regulated.
Matsuo N, Makino M, Banno H.

Plasma membrane localization of the type I H(+)-PPase AVP1 in sieve element-companion cell complexes from Arabidopsis thaliana.
Paez-Valencia J, Patron-Soberano A, Rodriguez-Leviz A, Sanchez-Lares J, Sanchez-Gomez C, Valencia-Mayoral P, Diaz-Rosas G, Gaxiola R.

Identification of factors required for meristem function in Arabidopsis using a novel next generation sequencing fast forward genetics approach.
Mokry M, Nijman IJ, van Dijken A, Benjamins R, Heidstra R, Scheres B, Cuppen E.

Atypical epigenetic mark in an atypical location: cytosine methylation at asymmetric (CNN) sites within the body of a non-repetitive tomato gene.
Gonzalez RM, Ricardi MM, Iusem ND.

Analysis of expressed sequence tags generated from full-length enriched cDNA libraries of melon.
Clepet C, Joobeur T, Zheng Y, Jublot D, Huang M, Truniger V, Boualem A, Hernandez-Gonzalez ME, Dolcet-Sanjuan R, Portnoy V, Mascarell-Creus A, Cano-Delgado AI, Katzir N, Bendahmane A, Giovannoni JJ, Aranda MA, Garcia-Mas J, Fei Z.

Genetic and physiological analysis of the relationship between partial resistance to clubroot and tolerance to trehalose in Arabidopsis thaliana.
Gravot A, Grillet L, Wagner G, Jubault M, Lariagon C, Baron C, Deleu C, Delourme R, Bouchereau A, Manzanares-Dauleux MJ.

Arabidopsis thaliana nucleosidase mutants provide new insights into nucleoside degradation.
Riegler H, Geserick C, Zrenner R.

Analysis of the Arabidopsis Cytosolic Proteome Highlights Subcellular Partitioning of Central Plant Metabolism.
Ito J, Batth TS, Petzold CJ, Redding-Johanson AM, Mukhopadhyay A, Verboom R, Meyer EH, Millar AH, Heazlewood JL.

Molecular functions of the PP2A regulatory subunit Tap46 in plants.
Ahn CS, Lee HS, Pai HS.

Starch-related carbon fluxes in roots and leaves of Arabidopsis thaliana.
Malinova I, Steup M, Fettke J.

Double-Knockout of Putative Endo-β-N-acetylglucosaminidase (ENGase) Genes in Arabidopsis thaliana: Loss of ENGase Activity Induced Accumulation of High-Mannose Type Free N-Glycans Bearing N,N'-Acetylchitobiosyl Unit.
Kimura Y, Takeoka Y, Inoue M, Maeda M, Fujiyama K.

Leaf Rolling Controlled by the Homeodomain Leucine Zipper Class IV Gene Roc5 in Rice.
Zou LP, Sun XH, Zhang ZG, Liu P, Wu JX, Tian CJ, Qiu JL, Lu TG.

Genome-wide Epigenetic Perturbation Jump-starts Patterns of Heritable Variation Found in Nature.
Roux F, Colomé Tatché M, Edelist C, Wardenaar R, Guerche P, Hospital F, Colot V, Jansen RC, Johannes F.

Mechanistic Analysis of AKT1 Regulation by the CBL-CIPK-PP2CA Interactions.
Lan WZ, Lee SC, Che YF, Jiang YQ, Luan S.

Cytosolic HSP90 Cochaperones HOP and FKBP Interact with Freshly Synthesized Chloroplast Preproteins of Arabidopsis.
Fellerer C, Schweiger R, Schöngruber K, Soll J, Schwenkert S.

Molecular Dissection of Xylan Biosynthesis during Wood Formation in Poplar.
Lee C, Teng Q, Zhong R, Ye ZH.

A transcriptional analysis of carotenoid, chlorophyll and plastidial isoprenoid biosynthesis genes during development and osmotic stress responses in Arabidopsis thaliana.
Meier S, Tzfadia O, Vallabhaneni R, Gehring C, Wurtzel ET.

WRKY Transcription Factors Involved in Activation of SA Biosynthesis Genes.
van Verk MC, Bol JF, Linthorst HJ.

Prospecting for Genes Involved in Transcriptional Regulation of Plant Defenses, a Bioinformatics Approach.
van Verk MC, Bol JF, Linthorst HJ.

Using spontaneous photon emission to image lipid oxidation patterns in plant tissues.
Birtic S, Ksas B, Genty B, Mueller MJ, Triantaphylidès C, Havaux M.

Lotus japonicus symRK-14 uncouples the cortical and epidermal symbiotic program.
Kosuta S, Held M, Hossain MS, Morieri G, Macgillivary A, Johansen C, Antolín-Llovera M, Parniske M, Oldroyd GE, Allan Downie J, Karas B, Szczyglowski K.

Evolutionary history of the GH3 family of acyl adenylases in rosids.
Okrent RA, Wildermuth MC.

The sucrose synthase-1 promoter from Citrus sinensis directs expression of the β-glucuronidase reporter gene in phloem tissue and in response to wounding in transgenic plants.
Singer SD, Hily JM, Cox KD.

Characterization and developmental expression of genes encoding the early carotenoid biosynthetic enzymes in Citrus paradisi Macf.
Costa MG, Moreira CD, Melton JR, Otoni WC, Moore GA.

Phosphorylation-Dependent Differential Regulation of Plant Growth, Cell Death, and Innate Immunity by the Regulatory Receptor-Like Kinase BAK1.
Schwessinger B, Roux M, Kadota Y, Ntoukakis V, Sklenar J, Jones A, Zipfel C.

Phosphorylation by MPK6: A conserved transcriptional modification mediates nitrate reductase activation and NO production?
Wang P, Du Y, Song CP.

Regulation of stomatal opening by the guard cell expansin AtEXPA1.
Wei PC, Zhang XQ, Zhao P, Wang XC.

Genome-wide network model capturing seed germination reveals coordinated regulation of plant cellular phase transitions.
Bassel GW, Lan H, Glaab E, Gibbs DJ, Gerjets T, Krasnogor N, Bonner AJ, Holdsworth MJ, Provart NJ.

A chloroplast-targeted DnaJ protein AtJ8 is negatively regulated by light and has rapid turnover in darkness.
Chen KM, Piippo M, Holmström M, Nurmi M, Pakula E, Suorsa M, Aro EM.

Transcriptome analysis by GeneTrail revealed regulation of functional categories in response to alterations of iron homeostasis in Arabidopsis thaliana.
Schuler M, Keller A, Backes C, Phillipar K, Lenhof HP, Bauer P.

Selection and Validation of Reference Genes for Quantitative Real-Time PCR in Buckwheat (Fagopyrum esculentum) Based on Transcriptome Sequence Data.
Demidenko NV, Logacheva MD, Penin AA.

Misregulation of AUXIN RESPONSE FACTOR 8 Underlies the Developmental Abnormalities Caused by Three Distinct Viral Silencing Suppressors in Arabidopsis.
Jay F, Wang Y, Yu A, Taconnat L, Pelletier S, Colot V, Renou JP, Voinnet O.

Stomatal Closure by Fast Abscisic Acid Signaling Is Mediated by the Guard Cell Anion Channel SLAH3 and the Receptor RCAR1.
Geiger D, Maierhofer T, Al-Rasheid KA, Scherzer S, Mumm P, Liese A, Ache P, Wellmann C, Marten I, Grill E, Romeis T, Hedrich R.

Interaction between the bHLH Transcription Factor FIT and ETHYLENE INSENSITIVE3/ETHYLENE INSENSITIVE3-LIKE1 Reveals Molecular Linkage between the Regulation of Iron Acquisition and Ethylene Signaling in Arabidopsis.
Lingam S, Mohrbacher J, Brumbarova T, Potuschak T, Fink-Straube C, Blondet E, Genschik P, Bauer P.

A Small Zinc Finger Thylakoid Protein Plays a Role in Maintenance of Photosystem II in Arabidopsis thaliana.
Lu Y, Hall DA, Last RL.

The cytosolic/nuclear HSC70 and HSP90 molecular chaperones are important for stomatal closure and modulate abscisic acid-dependent physiological responses in Arabidopsis.
Clément M, Leonhardt N, Droillard MJ, Reiter I, Montillet JL, Genty B, Lauriere C, Nussaume L, Noel LD.

ChIP-Array: combinatory analysis of ChIP-seq/chip and microarray gene expression data to discover direct/indirect targets of a transcription factor.
Qin J, Li MJ, Wang P, Zhang MQ, Wang J.

Genome-wide evidence for local DNA methylation spreading from small RNA-targeted sequences in Arabidopsis.
Ahmed I, Sarazin A, Bowler C, Colot V, Quesneville H.

The ERECTA gene controls spatial and temporal patterns of epidermal cell number and size in successive developing leaves of Arabidopsis thaliana.
Tisné S, Barbier F, Granier C.

The aromatic/arginine selectivity filter of NIP aquaporins plays a critical role in substrate selectivity for silicon, boron, and arsenic.
Mitani-Ueno N, Yamaji N, Zhao FJ, Ma JF.

My favourite flowering image.
Bernier G.

New proteomic developments to analyze protein isomerization and their biological significance in plants.
Grappin P, Collet B, Yang H, Jallet D, Ogé L, Zubarev R.

OsSFR6 is a functional rice orthologue of SENSITIVE TO FREEZING-6 and can act as a regulator of COR gene expression, osmotic stress and freezing tolerance in Arabidopsis.
Wathugala DL, Richards SA, Knight H, Knight MR.

Adenosine 5'-phosphate reductase (APR2) mutation in Arabidopsis implicates glutathione depletion in selenate toxicity.
Grant K, Carey NM, Mendoza M, Schulze J, Pilon M, Pilon-Smits EA, Van Hoewyk D.

Characterization of a plant-transformation-ready large-insert BIBAC library of Arabidopsis and bombardment transformation of a large-insert BIBAC of the library into tobacco.
Chang YL, Chuang HW, Meksem K, Wu FC, Chang CY, Zhang M, Zhang HB.

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Sales Manager Messages                                                           archives
15 Mar 2011  Effective today, the price of our cat. no. TR-01 ArabiTray Heavy-Duty Stacking Box-Tray (limited autoclave tolerant fiberglass, i.e. no more than one autoclave cycle every 3 months) has changed.  The new price of TR-01 is $21.40 USD each.  Effective today, the price of our cat. no. TR-02 ArabiTray Heavy-Duty Stacking Box-Tray (highly autoclave tolerant fiberglass, ie. multiple autoclave cycles daily) has changed.  The new price of TR-02 is $27.81 USD. Volume discounts of 10% in quantities of more than 10 are available for both TR-01 and TR-02.

27 Sep 2010  Effective September 27, 2010,  LEHLE SEEDS has instituted a new Excepted Quantities Processing (EQP) fee of $15.00 USD for all Vac-In-Stuff (Silwet L-77) orders requiring air-transport and thus "Dangerous Goods in Excepted Quantities" Labeling for IATA compliance.

01 Jan 2010  Effective January 1, 2010, LEHLE SEEDS has instituted a new Customs Documentation Preparation (CDP) fee. The CDP fee will be a flat $35 and will be applied to all orders shipped to destinations outside the U.S. The change is necessary to correct a long-standing imbalance inherent in our "One World" product pricing policy. The imbalance arises because international orders require additional customs documentation not required of domestic orders. Hence, preparation of said customs documents incur significant internal staffing costs, which previously have not been properly accounted for.

14 Aug 2009  Effective today, a handling charge of $15 will be added to all seed orders totaling less than $25.

16 Mar 2008  Effective today, prices of ARASYSTEM components will be increased across the product line an average of 4.0% to reflect the continuing devaluation of the U.S. dollar relative to the euro.

28 Jan 2008  Effective today, the price of our cat. no. DA-10 OptiVISOR Binocular Magnifier was increased 6.1% due to an equivalent rise in the manufacturer's wholesale price.  Prices were also increased, for the same reason, in associated OptiVISER accessories including cat. no. LP-01 OptiLOUPE monocular lens (5.3%), cat. no. LT-06 Optivisor Clip-on Light Attachment (3.9%) and cat. no. LT-2204 Optivisor Clip-on Light Attachment Replacement Bulb (7.7%).

06 Nov 2007  Effective today, prices of ARASYSTEM components will be increased across the product line an average of 1.61% to reflect the continuing devaluation of the U.S. dollar relative to the euro.

24 Sep 2007  Effective today, prices of ARASYSTEM components will be increased across the product line an average of 3.41% to reflect the continuing devaluation of the U.S. dollar relative to the euro.

08 May 2007 Custom Project Price Guide - Fall 2007 

Pricing for custom project services for the Fall 2007 production cycle are shown in the following table.  Conducting custom seed mutations is a service which is not always available, e.g. during periods of understaffing.  See our Special Notice page for the current status of this service.

Destination of Project Products

USA

Foreign

Genome Classification

Service

Non-
Transgenic
Transgenic Non-
Transgenic
Transgenic
Custom EMS mutation for M1 seeds  $2,090 $2,290 $2,090 $2,590
Custom EMS mutation for M2 seeds¥ $2,140 $2,340 $2,140 $2,640
Custom M1 grow-out & selfing to M2, 12 flats (minimum)§ $2,900 $3,200 $2,900 $3,200
Total $5,040 $5,540 $5,040 $5,840
Fee covers mutation and M1 seed drying services.   A maximum of 1.5 grams of seeds are mutated per batch and then dried and shipped.  Includes chemical waste neutralization, treatment and disposal services.   Where applicable, includes extra fees associated with transgenic biologicals such as their 1) special handling, containment and disposal and 2) compliance with USDA APHIS regulations to obtain a project specific importation permit.  Shipping and any related costs are not included.  A $500 retainer is required to engage this service. Billing is monthly thereafter.

¥  Fee covers mutation and M1 seed stratification services.  A maximum of 1.5 grams of seeds are mutated per batch and stratified at 5 C in preparation of planting. Fees for actual planting and grow-out of M1 seeds are covered in following service.  Includes chemical waste neutralization, treatment and disposal services.  Where applicable, includes extra fees associated with transgenic biologicals such as their 1) special handling, containment and disposal and 2) compliance with any or all  USDA APHIS regulations to obtain a project specific importation permit.  Shipping and any related costs are not included.  A $500 retainer is required to engage this service. Billing is monthly thereafter.

§ Fee covers M1 seed sowing, growing, maintaining, selfing, harvesting, cleaning and packaging of M2 progeny seeds for 4-5 months.  This service is paired with and follows the Custom EMS mutation service for M2 (above).  M1 seed are planted to achieve a target stand of 1,100  M1 parents on each of a minimum of twelve 28 x 56 cm greenhouse flats.  Sowing rate is 0.06 grams per flat.  Add $242 or $267 for each additional flat for non-transgenic and transgenic seeds, respectively. Fee includes a stand count, embryo test for mutation frequency estimation and remote monitoring of project via images posted to our web site. Where applicable, includes extra fees associated with rendering harmless and disposing of transgenic biologicals or medium containing  their residues.  Shipping and any related costs are not included.  Billing is monthly.  

19 Feb 2007  Effective today, prices of ARASYSTEM components will be increased across the product line an average of 2.3% to reflect recent devaluation in the dollar.

Production Manager Messages                                                     archives
19 Apr 2007  Notice of Custom Project Schedule

The schedule for custom projects for the remainder of 2007 and the first half of 2008 have been finalized.  Custom projects requiring a grow-out of M2 seeds must be initiated either in the months of September 2007 or February 2008.  This scheduling is required so custom projects coincide with our regular growth room operations.  LEHLE SEEDS currently idles its growth rooms from June to August for insect control, equipment maintenance, cleaning and disinfection.  The time is also used for processing chemical waste and growth medium waste prior to disposal.  Important deadlines are summarized in the following two sections.

  Fall 2007 Custom Projects - Reservations now being accepted

15 Jul 2007 - Last day to submit application for importation permit for September 2007 custom projects where client is 1) outside the U.S.A. and seeds are 2) transgenic.

01 Sep 2007 - Last day to receive seeds for September 2007 custom projects.  Seeds received after this date will be scheduled for February 2008.

01 Sep 2007 - 30 Sep 2007 Dates when custom projects with M2 grow-out will be initiated.  Projects not initiated by 30 Sep 2007 will be scheduled for February 2008.

31 Jan 2008 (or earlier) - Fall 2007 custom project harvesting complete.

  Spring 2008 Custom Projects - Reservations now being accepted

15 Dec 2007 - Last day to submit application for importation permit for February 2008 custom projects where client is 1) outside the U.S.A. and seeds are 2) transgenic.

01 Feb 2008 - Last day to receive seeds for September 2007 custom projects.  Seeds received after this date will be scheduled for September 2008.

01 Feb 2008 - 29 Feb 2008 Dates when custom projects with M2 grow-out  will be initiated.  Projects not initiated by 29 Feb 2008 will be scheduled for Sep 2008.

30 Jun 2008 (or earlier) - Spring 2008 custom project harvesting complete.

        Additional information concerning custom projects

Space in our growing rooms is limited and projects are assigned to the available space on a first come, first serve basis.  Projects that involve the importation of transgenic seeds into the U.S. will require LEHLE SEEDS to obtain a special USDA APHIS importation permit.  The permit process is such that the application should be started in July 2007 for the September custom projects and in December 2007 for the February 2008 custom projects.  For September 2007 projects, seeds must be in our hands no later than September 1, 2007.  For February 2008 projects, seeds must be in our hands no later than February 1, 2008.  Transgenic as well as non-transgenic seeds can be submitted, but transgenic seeds can only be imported to the USA under a special USDA APHIS which LEHLE SEEDS will obtain for its foreign customers before importation.  Contact Fred Lehle, Ph.D. by email if you have additional questions or interest. 

            Custom projects involving no M1 grow-out

Custom projects with immediate return of air-dried M1 seeds will be conducted only during the months of September - October 2007 and February - March 2008.

 
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